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mmu_ciPrkcb_1970
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrkcb_1970
mm39_Chr. Position ID:
chr7|122227094|122229064|+
Gene name:
Prkcb
Transcript:
ENSMUST00000143692.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
1970
Exon/intron sizes in nt:
1970
Flanking exon/introns:
chr7:122227094-122232967
Splice length:
1970
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACATTTTTTCTTTTTCATTGCCGAGTTACATCCGTGTTTTCTTTTCTGATGAGGCTAGAGTGGCCATGTTTCAGAACCCAAATGTCTTCAAGTAGTTTGGAGCATCTCAAGGAGATGGAATTATGCAGGTGGCATGTAGAAAGTGCTGCATAATCGAGACACGCTCGGAGTCCTACTATGTGCGTCCCTAGCATGTCGGCTCACAGACCCCCACGGGAGAGAAAATGCTTGCTTTTCTCCCTGGTCCTCTGCACTGCCATCTTTACCCCAACCCTCCAGGCTACATCCTCCCTACAAAATGGATGGATGAACCAAATGCTAGCAATATCCTTCCACTTTCCAGGCTGGGAGCTTGGCTTGAATCCAAGTATATGGCTGCTTTGCCCTAGAGGGAATCCCTCCACGCTGCCTGTTCTGGAAGCAGTTGAGCTTTGAAAAGAACATGCTAAAAATAAATTTTTATTTTTATTTTTTTAACTCAGTGTTAAGAAGATTATCTAAGTCCTGGGGAAAAAAGTGGGGGGAATGCGCTTTTAGACAAGTTTCCATCTAAAAGCACTTCAGGGTCAAAAGGCAACCAGCTTGGGTGCTGTCACCTTGCCATAGTTTCTAATACTGTATGTCTGATAGCGGTACCTTCATCCCCCAAACTACTCAAGAATGACATTTGGCACTGTTCCTGGAACCACATGGTCACTCTAGCCAGGTCCCAAAGGACCCTGATTCTACATTACATTTCAAATGTTACTTGCTTTTTATTTCTGTCATCATTGAAATGCAAAAAGAAAAAAGAAAAAAAAGAAAACGAAAGAAAAAGAAAAAAATACTCACTTTGTTACACATGCTTTAAGATCTGTGTCCAGATGTTATTAACCATAATGGCCTGCTTTGTTCAACCAAGAAGATGGCTATGGAACCCAGCAGACTTGTGCCCATGGGGAGGGGATTTGTCTAGATGTCCCACTGGTATTGGAGAGGTAATTGTGTGCTCTGAGAAAGACGCCATCTCCCCAAACCATGATGGGTGCATTCTTCAGTATGATGTTATTTTGCAAGATGTTTGTGGGAATGTTTATTTGCACTTCAGTATCTGTTCTGATATCTTTCTCCTAGCATCAAGATACAATACAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAAAGGAAAGGAAATCCTATTTCAAAGAAAACTGTTCCCTTTGAACAATGAGGACCCATACTACAGATTAGGGTCTAAAGAAGGAACTCAGGAGAAAGGAACTAAAGCTGGACCTTTAATAGCCTCAGCGTTAACCAGCCAGAGAGTAGAGCCCGGAGACTATTCAGAGATGCCTGATGTCCTGAAATGGGGTGGGGTAGACAGGCTGGAGCTTCCCACAGCATCAGACTTCAGAGACCACATTCCCATCAGAATCAAGCTTAGGAACATTCCCAAGGCTCTTAAACTTCTCATCAGAATCACCACTCTTACAAATTTTAGCATCCTTGAGCAAGCAACTCAATGAGCTCCCAGAAGTCCAAGGGAGCCCTTGGAGCAGGAGAGACTTCATTTCTCCCTGAACAGATGGGCACAGCAGGTGGCCCCTTACCCTTGCCTACATCTTAGCACCCTGCTCCTCACACACAGTCTTGAGGCAAATTCTTATTACAGGCTAAAAAATGTCTGGGTCCTCCAGTGCTTCTGAGAGATCACACAGAAATGTCCAAAGGACCAGTGTCCTTGAAGTATACCTCCTCATCTTTAAGAAGACTATGCCTTTGGGTTCTTCCGAGGCAAAGACCCTTATAGGTCATTCTTTCCTGGCCTCTTAGCAACTCAGCTTTAAGCTTAGGCCTTGCCCTGCTTAGATCATGTGAAGCAAGCTTGTTGTCCTAACAATCTTACGATTTTAGCTGCCAAAAGAGACCAGAGCAATCCTGCTCCTCACTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTGCCCTGCTTAGATCA
60.11
GGGTTCTGAAACATGGCCAC
59.4
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCTTGCCCTGCTTAGATC
60.82
AACACGGATGTAACTCGGCA
59.68
140
PCR template sequence:
AGGCCTTGCCCTGCTTAGATCATGTGAAGCAAGCTTGTTGTCCTAACAATCTTACGATTTTAGCTGCCAAAAGAGACCAGAGCAATCCTGCTCCTCACTCGTGACATTTTTTCTTTTTCATTGCCGAGTTACATCCGTGTTTTCTTTTCTGATGAGGCTAGAGTGGCCATGTTTCAGAACCCAAATGTCTTCAAGTAGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(2), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-206-3p(1), mmu-miR-34c-5p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-30b-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-411-3p(1), mmu-miR-501-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-192-5p(1), mmu-miR-511-3p(1), mmu-miR-541-5p(1), mmu-miR-215-5p(1), mmu-miR-301a-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-296-3p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCTCCTCACTCGTGACATTTTTTC
siRNA sets
AAAAATGTCACGAGTGAGG, AAAATGTCACGAGTGAGGA, AAAAAATGTCACGAGTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.72461606
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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